data_7DI8 # _model_server_result.job_id knkhZMJH6BSIwh7mE9MT4Q _model_server_result.datetime_utc '2024-11-15 16:27:23' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 7di8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":601}' # _entry.id 7DI8 # _exptl.entry_id 7DI8 _exptl.method 'ELECTRON CRYSTALLOGRAPHY' # _entity.details ? _entity.formula_weight 616.487 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 7DI8 _cell.length_a 69.98 _cell.length_b 174.02 _cell.length_c 199.45 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DI8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 G N N ? 2 I N N ? 2 K N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A OH TYR 358 A TYR 357 1_555 E FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? metalc ? metalc2 B OH TYR 358 B TYR 357 1_555 G FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc3 C OH TYR 358 C TYR 357 1_555 I FE HEM . C HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? metalc ? metalc4 D OH TYR 358 D TYR 357 1_555 K FE HEM . D HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag CHA C1A HEM sing 129 n n CHA C4D HEM doub 130 n n CHA HHA HEM sing 131 n n CHB C4A HEM sing 132 n n CHB C1B HEM doub 133 n n CHB HHB HEM sing 134 n n CHC C4B HEM sing 135 n n CHC C1C HEM doub 136 n n CHC HHC HEM sing 137 n n CHD C4C HEM doub 138 n n CHD C1D HEM sing 139 n n CHD HHD HEM sing 140 n n C1A C2A HEM doub 141 n y C1A NA HEM sing 142 n y C2A C3A HEM sing 143 n y C2A CAA HEM sing 144 n n C3A C4A HEM doub 145 n y C3A CMA HEM sing 146 n n C4A NA HEM sing 147 n y CMA HMA HEM sing 148 n n CMA HMAA HEM sing 149 n n CMA HMAB HEM sing 150 n n CAA CBA HEM sing 151 n n CAA HAA HEM sing 152 n n CAA HAAA HEM sing 153 n n CBA CGA HEM sing 154 n n CBA HBA HEM sing 155 n n CBA HBAA HEM sing 156 n n CGA O1A HEM doub 157 n n CGA O2A HEM sing 158 n n C1B C2B HEM sing 159 n n C1B NB HEM sing 160 n n C2B C3B HEM doub 161 n n C2B CMB HEM sing 162 n n C3B C4B HEM sing 163 n n C3B CAB HEM sing 164 n n C4B NB HEM doub 165 n n CMB HMB HEM sing 166 n n CMB HMBA HEM sing 167 n n CMB HMBB HEM sing 168 n n CAB CBB HEM doub 169 n n CAB HAB HEM sing 170 n n CBB HBB HEM sing 171 n n CBB HBBA HEM sing 172 n n C1C C2C HEM sing 173 n y C1C NC HEM sing 174 n y C2C C3C HEM doub 175 n y C2C CMC HEM sing 176 n n C3C C4C HEM sing 177 n y C3C CAC HEM sing 178 n n C4C NC HEM sing 179 n y CMC HMC HEM sing 180 n n CMC HMCA HEM sing 181 n n CMC HMCB HEM sing 182 n n CAC CBC HEM doub 183 n n CAC HAC HEM sing 184 n n CBC HBC HEM sing 185 n n CBC HBCA HEM sing 186 n n C1D C2D HEM sing 187 n n C1D ND HEM doub 188 n n C2D C3D HEM doub 189 n n C2D CMD HEM sing 190 n n C3D C4D HEM sing 191 n n C3D CAD HEM sing 192 n n C4D ND HEM sing 193 n n CMD HMD HEM sing 194 n n CMD HMDA HEM sing 195 n n CMD HMDB HEM sing 196 n n CAD CBD HEM sing 197 n n CAD HAD HEM sing 198 n n CAD HADA HEM sing 199 n n CBD CGD HEM sing 200 n n CBD HBD HEM sing 201 n n CBD HBDA HEM sing 202 n n CGD O1D HEM doub 203 n n CGD O2D HEM sing 204 n n O2A H2A HEM sing 205 n n O2D H2D HEM sing 206 n n FE NA HEM sing 207 n n FE NB HEM sing 208 n n FE NC HEM sing 209 n n FE ND HEM sing 210 n n # _atom_sites.entry_id 7DI8 _atom_sites.fract_transf_matrix[1][1] 0.01429 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005746 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.005014 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code E 2 HEM A 1 601 527 HEM HEM . F 3 NDP A 1 602 528 NDP NDP . G 2 HEM B 1 601 527 HEM HEM . H 3 NDP B 1 602 528 NDP NDP . I 2 HEM C 1 601 527 HEM HEM . J 3 NDP C 1 602 528 NDP NDP . K 2 HEM D 1 601 527 HEM HEM . L 3 NDP D 1 602 528 NDP NDP . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C CHA HEM . . . E 2 62.333 82.504 155.936 1 50.12 ? CHA HEM 601 A 1 HETATM 2 C CHB HEM . . . E 2 63.852 86.191 153.166 1 50.13 ? CHB HEM 601 A 1 HETATM 3 C CHC HEM . . . E 2 62.882 89.295 156.742 1 50.14 ? CHC HEM 601 A 1 HETATM 4 C CHD HEM . . . E 2 60.393 85.765 158.959 1 50.35 ? CHD HEM 601 A 1 HETATM 5 C C1A HEM . . . E 2 62.86 83.21 154.876 1 50.33 ? C1A HEM 601 A 1 HETATM 6 C C2A HEM . . . E 2 63.373 82.665 153.634 1 50.11 ? C2A HEM 601 A 1 HETATM 7 C C3A HEM . . . E 2 63.786 83.689 152.878 1 50.33 ? C3A HEM 601 A 1 HETATM 8 C C4A HEM . . . E 2 63.558 84.918 153.61 1 50.13 ? C4A HEM 601 A 1 HETATM 9 C CMA HEM . . . E 2 64.404 83.609 151.468 1 50.11 ? CMA HEM 601 A 1 HETATM 10 C CAA HEM . . . E 2 63.416 81.166 153.262 1 50.11 ? CAA HEM 601 A 1 HETATM 11 C CBA HEM . . . E 2 61.997 80.692 152.97 1 50.12 ? CBA HEM 601 A 1 HETATM 12 C CGA HEM . . . E 2 61.966 79.206 152.717 1 50.33 ? CGA HEM 601 A 1 HETATM 13 O O1A HEM . . . E 2 60.91 78.58 152.997 1 50.12 ? O1A HEM 601 A 1 HETATM 14 O O2A HEM . . . E 2 62.991 78.65 152.246 1 50.32 ? O2A HEM 601 A 1 HETATM 15 C C1B HEM . . . E 2 63.683 87.374 153.857 1 50.13 ? C1B HEM 601 A 1 HETATM 16 C C2B HEM . . . E 2 63.903 88.707 153.338 1 50.35 ? C2B HEM 601 A 1 HETATM 17 C C3B HEM . . . E 2 63.646 89.584 154.33 1 50.36 ? C3B HEM 601 A 1 HETATM 18 C C4B HEM . . . E 2 63.245 88.82 155.498 1 50.14 ? C4B HEM 601 A 1 HETATM 19 C CMB HEM . . . E 2 64.372 88.961 151.889 1 50.14 ? CMB HEM 601 A 1 HETATM 20 C CAB HEM . . . E 2 63.708 91.131 154.339 1 50.15 ? CAB HEM 601 A 1 HETATM 21 C CBB HEM . . . E 2 63.813 91.896 153.249 1 50.15 ? CBB HEM 601 A 1 HETATM 22 C C1C HEM . . . E 2 62.011 88.647 157.593 1 50.36 ? C1C HEM 601 A 1 HETATM 23 C C2C HEM . . . E 2 61.132 89.263 158.562 1 50.37 ? C2C HEM 601 A 1 HETATM 24 C C3C HEM . . . E 2 60.446 88.29 159.193 1 50.15 ? C3C HEM 601 A 1 HETATM 25 C C4C HEM . . . E 2 60.86 87.021 158.609 1 50.14 ? C4C HEM 601 A 1 HETATM 26 C CMC HEM . . . E 2 61.099 90.788 158.784 1 50.16 ? CMC HEM 601 A 1 HETATM 27 C CAC HEM . . . E 2 59.372 88.424 160.306 1 50.15 ? CAC HEM 601 A 1 HETATM 28 C CBC HEM . . . E 2 58.649 89.536 160.488 1 50.16 ? CBC HEM 601 A 1 HETATM 29 C C1D HEM . . . E 2 60.732 84.556 158.377 1 50.35 ? C1D HEM 601 A 1 HETATM 30 C C2D HEM . . . E 2 60.332 83.226 158.824 1 50.13 ? C2D HEM 601 A 1 HETATM 31 C C3D HEM . . . E 2 60.866 82.328 157.99 1 50.34 ? C3D HEM 601 A 1 HETATM 32 C C4D HEM . . . E 2 61.624 83.053 156.983 1 50.34 ? C4D HEM 601 A 1 HETATM 33 C CMD HEM . . . E 2 59.446 82.89 160.049 1 50.13 ? CMD HEM 601 A 1 HETATM 34 C CAD HEM . . . E 2 60.704 80.789 158.082 1 50.12 ? CAD HEM 601 A 1 HETATM 35 C CBD HEM . . . E 2 59.37 80.362 157.472 1 50.34 ? CBD HEM 601 A 1 HETATM 36 C CGD HEM . . . E 2 59.282 78.857 157.424 1 50.34 ? CGD HEM 601 A 1 HETATM 37 O O1D HEM . . . E 2 58.943 78.307 156.343 1 50.12 ? O1D HEM 601 A 1 HETATM 38 O O2D HEM . . . E 2 59.556 78.207 158.464 1 50.11 ? O2D HEM 601 A 1 HETATM 39 N NA HEM . . . E 2 62.996 84.585 154.824 1 50.12 ? NA HEM 601 A 1 HETATM 40 N NB HEM . . . E 2 63.288 87.487 155.168 1 50.35 ? NB HEM 601 A 1 HETATM 41 N NC HEM . . . E 2 61.816 87.282 157.644 1 50.14 ? NC HEM 601 A 1 HETATM 42 N ND HEM . . . E 2 61.522 84.408 157.251 1 50.34 ? ND HEM 601 A 1 HETATM 43 FE FE HEM . . . E 2 62.677 85.922 156.33 1 50.13 ? FE HEM 601 A 1 HETATM 44 H HHB HEM . . . E 2 64.22 86.263 152.261 1 60.33 ? HHB HEM 601 A 1 HETATM 45 H HHC HEM . . . E 2 63.067 90.24 156.929 1 60.35 ? HHC HEM 601 A 1 HETATM 46 H HHD HEM . . . E 2 59.753 85.728 159.7 1 60.61 ? HHD HEM 601 A 1 HETATM 47 H HMA HEM . . . E 2 65.225 83.075 151.501 1 60.32 ? HMA HEM 601 A 1 HETATM 48 H HMAA HEM . . . E 2 64.614 84.512 151.151 1 60.32 ? HMAA HEM 601 A 1 HETATM 49 H HMAB HEM . . . E 2 63.765 83.188 150.855 1 60.32 ? HMAB HEM 601 A 1 HETATM 50 H HAA HEM . . . E 2 63.784 80.657 154.001 1 60.31 ? HAA HEM 601 A 1 HETATM 51 H HAAA HEM . . . E 2 63.969 81.042 152.474 1 60.31 ? HAAA HEM 601 A 1 HETATM 52 H HBA HEM . . . E 2 61.661 81.156 152.186 1 60.32 ? HBA HEM 601 A 1 HETATM 53 H HBAA HEM . . . E 2 61.43 80.898 153.729 1 60.32 ? HBAA HEM 601 A 1 HETATM 54 H HMB HEM . . . E 2 65.23 88.531 151.747 1 60.34 ? HMB HEM 601 A 1 HETATM 55 H HMBA HEM . . . E 2 64.459 89.915 151.74 1 60.34 ? HMBA HEM 601 A 1 HETATM 56 H HMBB HEM . . . E 2 63.721 88.595 151.27 1 60.34 ? HMBB HEM 601 A 1 HETATM 57 H HAB HEM . . . E 2 63.668 91.573 155.191 1 60.35 ? HAB HEM 601 A 1 HETATM 58 H HBB HEM . . . E 2 63.85 92.862 153.336 1 60.36 ? HBB HEM 601 A 1 HETATM 59 H HBBA HEM . . . E 2 63.855 91.487 152.371 1 60.36 ? HBBA HEM 601 A 1 HETATM 60 H HMC HEM . . . E 2 61.976 91.094 159.063 1 60.37 ? HMC HEM 601 A 1 HETATM 61 H HMCA HEM . . . E 2 60.448 91.001 159.471 1 60.37 ? HMCA HEM 601 A 1 HETATM 62 H HMCB HEM . . . E 2 60.851 91.23 157.956 1 60.37 ? HMCB HEM 601 A 1 HETATM 63 H HAC HEM . . . E 2 59.22 87.677 160.889 1 60.37 ? HAC HEM 601 A 1 HETATM 64 H HBC HEM . . . E 2 57.991 89.576 161.2 1 60.38 ? HBC HEM 601 A 1 HETATM 65 H HBCA HEM . . . E 2 58.785 90.303 159.91 1 60.38 ? HBCA HEM 601 A 1 HETATM 66 H HMD HEM . . . E 2 59.874 83.227 160.863 1 60.34 ? HMD HEM 601 A 1 HETATM 67 H HMDA HEM . . . E 2 59.336 81.918 160.116 1 60.34 ? HMDA HEM 601 A 1 HETATM 68 H HMDB HEM . . . E 2 58.568 83.312 159.942 1 60.34 ? HMDB HEM 601 A 1 HETATM 69 H HAD HEM . . . E 2 60.733 80.519 159.013 1 60.32 ? HAD HEM 601 A 1 HETATM 70 H HADA HEM . . . E 2 61.429 80.361 157.601 1 60.32 ? HADA HEM 601 A 1 HETATM 71 H HBD HEM . . . E 2 59.3 80.717 156.572 1 60.59 ? HBD HEM 601 A 1 HETATM 72 H HBDA HEM . . . E 2 58.644 80.709 158.013 1 60.59 ? HBDA HEM 601 A 1 HETATM 73 H HHA HEM . . . E 2 62.612 81.569 156.03 1 60.32 ? HHA HEM 601 A 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 35 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 73 #